Dissecting short- and long-term metabolic adaptation to drug treatment

Ortmayr K, Moreno R. and Zampieri M. Expanding the search for small-molecule antibacterials by multidimensional profiling. Nature Chemical Biology, 2022.

Anglada-Girotto M., Handschin G., Ortmayr K., Campos A., Gillet L., Manfredi P., Mulholland, Berney M., Jenal U., Picotti P. and Zampieri M. Combining CRISPRi and metabolomics for functional annotation of compound libraries. Nature Chemical Biology 2022.

Øyås O, Borrell S, Trauner A, Zimmermann M, Feldmann J, Gagneux S, Stelling J, Sauer U and Zampieri M. Model-based integration of genomics and metabolomics reveals SNP functionality in human-adapted Mycobacterium tuberculosis. PNAS 2020.

Dubuis S, Ortmayr K, Zampieri M. A framework for large-scale metabolome drug profiling links coenzyme A metabolism to the toxicity of anti-cancer drug dichloroacetate. Communications Biology 2018.

Zampieri M*, Szappanos B, Buchieri M, Trauner A, Piazza I, Picotti P, Gagneux S, Borrell S, Gicquel B, Lelievre J, Papp B and Sauer U. (* corresponding author). High-throughput dynamic metabolomics identifies mode of action for uncharacterized antimicrobial compounds. Science Translational Medicine 2018.

Zampieri M*, Enke T, Chubukov V, Sauer U* (*corresponding author). Metabolic constraints on the evolution of antibiotic resistance. Molecular Systems Biology. 2017.

Zampieri M. From the metabolic profiling of drug response to drug mode of action. Current Opinion in Systems Biology 2018.

New tools to explore dynamic adaptive responses to endogenous and exogenous perturbations

Fuentes D., Manfredi P., Jenal U. and Zampieri M.Pareto optimality between growth-rate and lag-time couples metabolic noise to phenotypic heterogeneity in Escherichia coli. Nature Communications 2021.

Øyås O, Borrell S, Trauner A, Zimmermann M, Feldmann J, Gagneux S, Stelling J, Sauer U and Zampieri M. Model-based integration of genomics and metabolomics reveals SNP functionality in human-adapted Mycobacterium tuberculosis. PNAS 2020.

Campos A, Zampieri M. Metabolomics-driven exploration of the chemical drug space to predict synergistic antimicrobial effects. Molecular Cell 2019.

Ortmayr K, Dubuis S, Zampieri M. Charting the cross-functional map between transcription factors and cancer metabolism. Nature Communications 2019.

Metabolic fingerprinting of drug modes of action

Ortmayr K, Moreno R. and Zampieri M. Expanding the search for small-molecule antibacterials by multidimensional profiling. Nature Chemical Biology, 2022.

Anglada-Girotto M., Handschin G., Ortmayr K., Campos A., Gillet L., Manfredi P., Mulholland, Berney M., Jenal U., Picotti P. and Zampieri M. Combining CRISPRi and metabolomics for functional annotation of compound libraries. Nature Chemical Biology 2022.

Campos A, Zampieri M. Metabolomics-driven exploration of the chemical drug space to predict synergistic antimicrobial effects. Molecular Cell 2019.

Dubuis S, Ortmayr K, Zampieri M. A framework for large-scale metabolome drug profiling links coenzyme A metabolism to the toxicity of anti-cancer drug dichloroacetate. Communications Biology 2018.

Mattia Zampieri*, Balazs Szappanos, Maria Virginia Buchieri, Andrej Trauner, Ilaria Piazza, Paola Picotti, Sébastien Gagneux, Sonia Borrell, Brigitte Gicquel, Joel Lelievre, Balazs Papp and Uwe Sauer. (*corresponding author). High-throughput dynamic metabolomics identifies mode of action for uncharacterized antimicrobial compounds. Science Translational Medicine 2017.

From aberrant gene regulation to rewiring of metabolism in cancer.

Ortmayr K and Zampieri M. Sorting-free metabolic profiling uncovers the vulnerability of fatty acid β-oxidation in in vitro quiescence models. Molecular Systems Biology 2022.

Ortmayr K, Dubuis S, Zampieri M. Charting the cross-functional map between transcription factors and cancer metabolism. Nature Communications 2019.

Dubuis S, Ortmayr K, Zampieri M. A framework for large-scale metabolome drug profiling links coenzyme A metabolism to the toxicity of anti-cancer drug dichloroacetate. Communications Biology 2018.